Locus 9340

Sequence ID dm3.chr3R
Location 6,049,801 – 6,049,913
Length 112
Max. P 0.982395
window12806

overview

Window 6

Location 6,049,801 – 6,049,913
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 74.72
Shannon entropy 0.34918
G+C content 0.31344
Mean single sequence MFE -22.50
Consensus MFE -15.21
Energy contribution -15.10
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -2.49
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.10
SVM RNA-class probability 0.982395
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 6049801 112 + 27905053
UUUCUAUCUAUAAAGGGGACAAUAAUAUCUAAAGUCAAAAAAAA--------AAACUAAGAUAGGAAACGUUAAAAUACCUAUAAAGUGCUCCAGCUCAUCGGUGGCAUUUUGUAGGUAU
(((((((((.....(....)............(((.........--------..))).)))))))))........((((((((((((((((((........)).)))))))))))))))) ( -30.80, z-score =  -5.30, R)
>droSim1.chr3R 12187814 92 - 27517382
UUUCUAUCUAUAAAGGGGAAAAUAAUUUCUAAAAUCAAA----------------------------ACGUUUACCUACCUAUAAAGUGUUCCAGCUCAUCGGUGGCAUUUUGAAGGUAU
.............((((((((....))))).((((....----------------------------..)))).)))((((.(((((((((((........)).))))))))).)))).. ( -16.20, z-score =  -0.86, R)
>droSec1.super_0 5249190 116 - 21120651
----UAUCUAUAAAGGGGAAAAUAAUUUCCAAAAUCAAAGCAAAGAAAUUAAAAAGUGAUAUAGGAAACGUUUAACUACCUAUAAAGUGUUCCAGCUCAUCAGUGGCAUUUUGAAGGUAU
----..((((((....(((((....)))))....(((.....((....))......)))))))))...........(((((.((((((((..(.........)..)))))))).))))). ( -20.50, z-score =  -1.30, R)
>consensus
UUUCUAUCUAUAAAGGGGAAAAUAAUUUCUAAAAUCAAA__AAA________AAA_U_A_AUAGGAAACGUUUAACUACCUAUAAAGUGUUCCAGCUCAUCGGUGGCAUUUUGAAGGUAU
................(((((....)))))..............................................(((((.((((((((..(.........)..)))))))).))))). (-15.21 = -15.10 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:02:30 2011